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BLASTING Wolbachia targets (600+) from Dr. Kumar's paper

PURPOSE:

Brugia malayi worm

To see if there are any proteins with Xray crystal structures in the PDB similar to these Wolbachia targets. If so, this will enable us to do Virtual Screening against this endosymbiont of the Brugia malayi (helminth).

INSTRUCTIONS:

Go to WOLTR_JoshViewGDocs spreadsheet on Google Docs, sign in as vdsclass

• https://docs.google.com/spreadsheet/ccc?key=0AvGl3lMyhDsodHg2NElsLXNXeDFQcGVTWDJnWTc1VkE
  

  Wolbachia bacterium

• Alternatively, go to our VDSclass Google Docs and open the file directly.

Find the entries associated with your name (should have 17 entries). Use Ctrl + F to search for your name, if necessary
Copy the #Accession number for each
Go to NCBI Gene database website
Enter the Gen #Accession number
ON the right hand side (rhs) find the 'Protein' link
Click on the entry with the matching #Accession number (usually the first one)
On the rhs

• Analyze this Sequence >> Run BLAST
• Should see your Accession number in the top panel
• Under Database option, Choose Protein Data Bank (pdb)
• Run BLAST
  • Record Results to spreadsheet for the top match
  • Date, Your Name, Accession of PDB BLASTmatch, Description, Max Score, Total Score, Query Coverage, E value, Max ident
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